# List of top-scoring protein chains for T0357.t2k-w0.5 hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.cse.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1v7lA 163 1.08e+00 1zvyA 136 1.50e+00 1wn0A 145 2.26e+00 1iqzA 81 2.65e+00 d.58.1.4 66281 2gp4A 628 2.70e+00 2corA 79 4.73e+00 1kqfB 294 5.08e+00 d.58.1.5,f.23.22.1 75900,75901 1fx2A 235 9.01e+00 1fx2A d.58.29.1 39430 2cp5A 141 9.04e+00 1ox3A 109 9.31e+00 h.1.17.1 93668 1fx4A 231 1.04e+01 1fx2A d.58.29.1 39431 1q7hA 153 1.19e+01 b.122.1.1,d.17.6.2 96042,96043 2bf5A 98 1.28e+01 2bf2A 102 1.30e+01 1gakA 141 1.79e+01 1gakA a.19.1.1 16415 1a5z 319 1.82e+01 1ceqA c.2.1.5,d.162.1.1 30181,42148 1ckv 141 1.88e+01 1ckv d.137.1.1 41452 1iweA 457 2.06e+01 c.37.1.10 71486 1kqfA 1015 2.11e+01 b.52.2.2,c.81.1.1 72871,72872 1i21A 159 2.31e+01 1i21A d.108.1.1 61549 1i12A 160 2.39e+01 1i21A d.108.1.1 61515 1napA 70 2.44e+01 1tvxA d.9.1.1 37445 1xfrA 128 2.45e+01 1tvxA 75 2.53e+01 1tvxA d.9.1.1 37441 1dqeA 137 2.56e+01 1dqeA a.39.2.1 17388 1i1dA 161 2.58e+01 1i21A d.108.1.1 61526 2fjyA 142 2.61e+01 1f9pA 85 2.73e+01 d.9.1.1 90479 1aquA 297 2.74e+01 1aquA c.37.1.5 31942 1vs0A 310 2.75e+01 2cxaA 256 2.88e+01 1o89A 345 2.90e+01 b.35.1.2,c.2.1.1 92644,92645 2d2zA 261 3.04e+01 1clf 55 3.13e+01 2fdn d.58.1.1 38947 2aheA 267 3.17e+01 1plfA 72 3.28e+01 1tvxA d.9.1.1 37373 1t3lA 337 3.33e+01 b.34.2.1,c.37.1.1 106358,106359 1ryiA 382 3.87e+01 2bvlA 543 3.88e+01 2bvmA 542 3.88e+01 1ydxA 406 4.00e+01 2ftcN 96 4.11e+01 2bsgA 487 4.15e+01 1vyvA 359 4.41e+01 b.34.2.1,c.37.1.1 108918,108919 1t0hB 224 4.58e+01 c.37.1.1 106208 1kswA 452 4.70e+01 b.34.2.1,d.93.1.1,d.144.1.7 68860,68861,68862 1sq1A 370 4.83e+01 d.258.1.1 98961 1v29B 229 4.84e+01 1qe6A 72 4.84e+01 1tvxA d.9.1.1 37359 2ftcA 189 4.95e+01 2bf3A 92 5.02e+01 1akp 114 5.07e+01 2mcm b.1.7.1 22212 1dl5A 317 5.08e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 1hq0A 295 5.17e+01 1hzgA d.194.1.1 61122 3il8 72 5.23e+01 1tvxA d.9.1.1 37356 1vyuA 351 5.23e+01 b.34.2.1,c.37.1.1 108914,108915 1hzgA 295 5.28e+01 1hzgA d.194.1.1 61436 1pguA 615 5.60e+01 b.69.4.1,b.69.4.1 88069,88070 1ng4A 390 5.71e+01 c.3.1.2,d.16.1.3 85666,85667 1tv5A 443 5.87e+01 2b87B 58 6.03e+01 1zeqX 84 6.05e+01 1jx7A 117 6.46e+01 c.114.1.1 77195 1bk2 57 6.49e+01 1tuc b.34.2.1 24495 1odfA 290 6.64e+01 c.37.1.6 92782 1ail 73 6.68e+01 1ail a.16.1.1 16381 1ns1A 73 6.68e+01 1ail a.16.1.1 16382 2gx9A 129 6.78e+01 1vchA 175 6.87e+01 1ivyA 452 6.94e+01 1ivyA c.69.1.5 34654 1yviA 149 6.97e+01 2masA 314 7.00e+01 2masA c.70.1.1 34810 1vqoE 178 7.65e+01 1xovA 326 7.67e+01 1jj2E 177 7.69e+01 1ffk1 d.141.1.1,d.141.1.1 63089,63090 1mi2A 73 7.84e+01 1tvxA d.9.1.1 37455 1zcaA 359 8.02e+01 1jmkC 230 8.06e+01 c.69.1.22 71747 1hy3A 294 8.14e+01 c.37.1.5 71090 3psg 370 8.38e+01 1smrA b.50.1.2 26841 1bteA 97 8.38e+01 1bteA g.7.1.3 44463 1wl7A 312 8.74e+01 2gooC 102 8.77e+01 2a4cA 99 8.85e+01 1g3mA 294 8.85e+01 c.37.1.5 83268 2cqaA 95 8.86e+01 1h85A 295 8.86e+01 b.43.4.2,c.25.1.1 65716,65717 1k3sA 113 8.89e+01 d.198.1.1 68120